Isolation, complete genome sequencing and in silico genome mining of Burkholderia for secondary metabolites
Abstract Recent years, Burkholderia species have emerged as a new source of natural products (NPs) with increasing attractions. Genome mining suggests the Burkholderia genomes include many natural product biosynthetic gene clusters (BGCs) which are new targets for drug discovery. In order to collect...
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| Format: | Article |
| Language: | English |
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BMC
2022-12-01
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| Series: | BMC Microbiology |
| Subjects: | |
| Online Access: | https://doi.org/10.1186/s12866-022-02692-x |
| _version_ | 1797973705654009856 |
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| author | Khorshed Alam Yiming Zhao Xuefei Lu Kai Gong Lin Zhong Jinfang Hao Md. Mahmudul Islam Saiful Islam Geng Li Youming Zhang Ruijuan Li Aiying Li |
| author_facet | Khorshed Alam Yiming Zhao Xuefei Lu Kai Gong Lin Zhong Jinfang Hao Md. Mahmudul Islam Saiful Islam Geng Li Youming Zhang Ruijuan Li Aiying Li |
| author_sort | Khorshed Alam |
| collection | DOAJ |
| description | Abstract Recent years, Burkholderia species have emerged as a new source of natural products (NPs) with increasing attractions. Genome mining suggests the Burkholderia genomes include many natural product biosynthetic gene clusters (BGCs) which are new targets for drug discovery. In order to collect more Burkholderia, here, a strain S-53 was isolated from the soil samples on a mountain area in Changde, P.R. China and verified by comparative genetic analysis to belong to Burkholderia. The complete genome of Burkholderia strain S-53 is 8.2 Mbps in size with an average G + C content of 66.35%. Its taxonomy was both characterized by 16S rRNA- and whole genome-based phylogenetic trees. Bioinformatic prediction in silico revealed it has a total of 15 NP BGCs, some of which may encode unknown products. It is expectable that availability of these BGCs will speed up the identification of new secondary metabolites from Burkholderia and help us understand how sophisticated BGC regulation works. |
| first_indexed | 2024-04-11T04:08:35Z |
| format | Article |
| id | doaj.art-7f803a0ce7104ab19e785fa60081c491 |
| institution | Directory Open Access Journal |
| issn | 1471-2180 |
| language | English |
| last_indexed | 2024-04-11T04:08:35Z |
| publishDate | 2022-12-01 |
| publisher | BMC |
| record_format | Article |
| series | BMC Microbiology |
| spelling | doaj.art-7f803a0ce7104ab19e785fa60081c4912023-01-01T12:14:12ZengBMCBMC Microbiology1471-21802022-12-0122111110.1186/s12866-022-02692-xIsolation, complete genome sequencing and in silico genome mining of Burkholderia for secondary metabolitesKhorshed Alam0Yiming Zhao1Xuefei Lu2Kai Gong3Lin Zhong4Jinfang Hao5Md. Mahmudul Islam6Saiful Islam7Geng Li8Youming Zhang9Ruijuan Li10Aiying Li11Helmholtz International Lab for Anti-Infectives, State Key Laboratory of Microbial Technology, Shandong University-Helmholtz Institute of Biotechnology, Shandong UniversityHelmholtz International Lab for Anti-Infectives, State Key Laboratory of Microbial Technology, Shandong University-Helmholtz Institute of Biotechnology, Shandong UniversityHelmholtz International Lab for Anti-Infectives, State Key Laboratory of Microbial Technology, Shandong University-Helmholtz Institute of Biotechnology, Shandong UniversityHelmholtz International Lab for Anti-Infectives, State Key Laboratory of Microbial Technology, Shandong University-Helmholtz Institute of Biotechnology, Shandong UniversityHelmholtz International Lab for Anti-Infectives, State Key Laboratory of Microbial Technology, Shandong University-Helmholtz Institute of Biotechnology, Shandong UniversityHelmholtz International Lab for Anti-Infectives, State Key Laboratory of Microbial Technology, Shandong University-Helmholtz Institute of Biotechnology, Shandong UniversityDepartment of Microbiology, Rajshahi Institute of Biosciences (RIB), Affi. University of RajshahiBangladesh Council of Scientific and Industrial Research (BCSIR)Helmholtz International Lab for Anti-Infectives, State Key Laboratory of Microbial Technology, Shandong University-Helmholtz Institute of Biotechnology, Shandong UniversityHelmholtz International Lab for Anti-Infectives, State Key Laboratory of Microbial Technology, Shandong University-Helmholtz Institute of Biotechnology, Shandong UniversityHelmholtz International Lab for Anti-Infectives, State Key Laboratory of Microbial Technology, Shandong University-Helmholtz Institute of Biotechnology, Shandong UniversityHelmholtz International Lab for Anti-Infectives, State Key Laboratory of Microbial Technology, Shandong University-Helmholtz Institute of Biotechnology, Shandong UniversityAbstract Recent years, Burkholderia species have emerged as a new source of natural products (NPs) with increasing attractions. Genome mining suggests the Burkholderia genomes include many natural product biosynthetic gene clusters (BGCs) which are new targets for drug discovery. In order to collect more Burkholderia, here, a strain S-53 was isolated from the soil samples on a mountain area in Changde, P.R. China and verified by comparative genetic analysis to belong to Burkholderia. The complete genome of Burkholderia strain S-53 is 8.2 Mbps in size with an average G + C content of 66.35%. Its taxonomy was both characterized by 16S rRNA- and whole genome-based phylogenetic trees. Bioinformatic prediction in silico revealed it has a total of 15 NP BGCs, some of which may encode unknown products. It is expectable that availability of these BGCs will speed up the identification of new secondary metabolites from Burkholderia and help us understand how sophisticated BGC regulation works.https://doi.org/10.1186/s12866-022-02692-xBurkholderiaNatural productsGenome miningBiosynthetic gene cluster |
| spellingShingle | Khorshed Alam Yiming Zhao Xuefei Lu Kai Gong Lin Zhong Jinfang Hao Md. Mahmudul Islam Saiful Islam Geng Li Youming Zhang Ruijuan Li Aiying Li Isolation, complete genome sequencing and in silico genome mining of Burkholderia for secondary metabolites BMC Microbiology Burkholderia Natural products Genome mining Biosynthetic gene cluster |
| title | Isolation, complete genome sequencing and in silico genome mining of Burkholderia for secondary metabolites |
| title_full | Isolation, complete genome sequencing and in silico genome mining of Burkholderia for secondary metabolites |
| title_fullStr | Isolation, complete genome sequencing and in silico genome mining of Burkholderia for secondary metabolites |
| title_full_unstemmed | Isolation, complete genome sequencing and in silico genome mining of Burkholderia for secondary metabolites |
| title_short | Isolation, complete genome sequencing and in silico genome mining of Burkholderia for secondary metabolites |
| title_sort | isolation complete genome sequencing and in silico genome mining of burkholderia for secondary metabolites |
| topic | Burkholderia Natural products Genome mining Biosynthetic gene cluster |
| url | https://doi.org/10.1186/s12866-022-02692-x |
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